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Author Details

Petras J Kundrotas
The University of Kansas
1991
65
21
Andrej Sali (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
37676594GRAMM Web Server for Protein Docking.Methods Mol Biol2024
37676594GRAMM Web Server for Protein Docking.Methods Mol Biol2024
36690744Towards a structurally resolved human protein interaction network.Nat Struct Mol Biol2023
37283696Editorial: Protein recognition and associated diseases.Front Bioinform2023
37405868Evaluation of AlphaFold-Multimer prediction on multi-chain protein complexes.Bioinformatics2023
36690744Towards a structurally resolved human protein interaction network.Nat Struct Mol Biol2023
37283696Editorial: Protein recognition and associated diseases.Front Bioinform2023
37405868Evaluation of AlphaFold-Multimer prediction on multi-chain protein complexes.Bioinformatics2023
34788800Limits and potential of combined folding and docking.Bioinformatics2022
35580077DOCKGROUND membrane protein-protein set.PLoS One2022
36224222Predicting the structure of large protein complexes using AlphaFold and Monte Carlo tree search.Nat Commun2022
36281025Dockground resource for protein recognition studies.Protein Sci2022
36191203Docking-based long timescale simulation of cell-size protein systems at atomic resolution.Proc Natl Acad Sci U S A2022
36425657Size of the protein-protein energy funnel in crowded environment.Front Mol Biosci2022
35662458GWYRE: A Resource for Mapping Variants onto Experimental and Modeled Structures of Human Protein Complexes.J Mol Biol2022
34788800Limits and potential of combined folding and docking.Bioinformatics2022
35246997Scoring of protein-protein docking models utilizing predicted interface residues.Proteins2022
35072956Dockground scoring benchmarks for protein docking.Proteins2022
35580077DOCKGROUND membrane protein-protein set.PLoS One2022
35662458GWYRE: A Resource for Mapping Variants onto Experimental and Modeled Structures of Human Protein Complexes.J Mol Biol2022
36425657Size of the protein-protein energy funnel in crowded environment.Front Mol Biosci2022
36224222Predicting the structure of large protein complexes using AlphaFold and Monte Carlo tree search.Nat Commun2022
36191203Docking-based long timescale simulation of cell-size protein systems at atomic resolution.Proc Natl Acad Sci U S A2022
36281025Dockground resource for protein recognition studies.Protein Sci2022
35072956Dockground scoring benchmarks for protein docking.Proteins2022
35246997Scoring of protein-protein docking models utilizing predicted interface residues.Proteins2022
32960948Text mining for modeling of protein complexes enhanced by machine learning.Bioinformatics2021
32960948Text mining for modeling of protein complexes enhanced by machine learning.Bioinformatics2021
33166001Structural motifs in protein cores and at protein-protein interfaces are different.Protein Sci2021
33166001Structural motifs in protein cores and at protein-protein interfaces are different.Protein Sci2021
32170770Application of docking methodologies to modeled proteins.Proteins2020
32170770Application of docking methodologies to modeled proteins.Proteins2020
31994759How to choose templates for modeling of protein complexes: Insights from benchmarking template-based docking.Proteins2020
32621232Dockground Tool for Development and Benchmarking of Protein Docking Procedures.Methods Mol Biol2020
31994759How to choose templates for modeling of protein complexes: Insights from benchmarking template-based docking.Proteins2020
32621232Dockground Tool for Development and Benchmarking of Protein Docking Procedures.Methods Mol Biol2020
30520123Gene ontology improves template selection in comparative protein docking.Proteins2019
31612567Blind prediction of homo- and hetero-protein complexes: The CASP13-CAPRI experiment.Proteins2019
30520123Gene ontology improves template selection in comparative protein docking.Proteins2019
31612567Blind prediction of homo- and hetero-protein complexes: The CASP13-CAPRI experiment.Proteins2019
28891124Dockground: A comprehensive data resource for modeling of protein complexes.Protein Sci2018
28905425Modeling CAPRI targets 110-120 by template-based and free docking using contact potential and combined scoring function.Proteins2018
28891124Dockground: A comprehensive data resource for modeling of protein complexes.Protein Sci2018
30122295Contact Potential for Structure Prediction of Proteins and Protein Complexes from Potts Model.Biophys J2018
30003468Inhibition of protein interactions: co-crystalized protein-protein interfaces are nearly as good as holo proteins in rigid-body ligand docking.J Comput Aided Mol Des2018
30226647Computational Feasibility of an Exhaustive Search of Side-Chain Conformations in Protein-Protein Docking.J Comput Chem2018
29506465Natural language processing in text mining for structural modeling of protein complexes.BMC Bioinformatics2018
30122295Contact Potential for Structure Prediction of Proteins and Protein Complexes from Potts Model.Biophys J2018
30226647Computational Feasibility of an Exhaustive Search of Side-Chain Conformations in Protein-Protein Docking.J Comput Chem2018
30003468Inhibition of protein interactions: co-crystalized protein-protein interfaces are nearly as good as holo proteins in rigid-body ligand docking.J Comput Aided Mol Des2018
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Collaborators

Ilya A Vakser
The University of Kansas
Co-authored papers 40
Ivan Anishchenko
University of Washington
Co-authored papers 10
Emil Alexov
Co-authored papers 10
Varsha D Badal
Co-authored papers 5
Marc F Lensink
University Lille, CNRS
Co-authored papers 4
Sergei Grudinin
University Grenoble Alpes, CNRS
Co-authored papers 4
Shoshana J Wodak
VIB-VUB Center for Structural Biology
Co-authored papers 3
Miriam Eisenstein
Weizmann Institute of Science
Co-authored papers 3
David W Ritchie
Universite de Lorraine, CNRS
Co-authored papers 3
Dima Kozakov
Stony Brook University
Co-authored papers 3
Paul A Bates
The Francis Crick Institute
Co-authored papers 3
Sandor Vajda
Boston University
Co-authored papers 3
Alexandre M J J Bonvin
Bijvoet Center for Biomolecular Research, Utrecht University
Co-authored papers 3
Juan Fern??ndez-Recio
Instituto de Ciencias de la Vid y del Vino (ICVV-CSIC)
Co-authored papers 3
Chaok Seok
Seoul National University
Co-authored papers 3
Sheng-You Huang
Huazhong University of Science and Technology
Co-authored papers 3
Brian G Pierce
University of Maryland Institute for Bioscience and Biotechnology Research
Co-authored papers 3
Thom Vreven
Visterra Inc.
Co-authored papers 3
Adrien S J Melquiond
Oncode Institute & Hubrecht Institute-KNAW and University Medical Center Utrecht
Co-authored papers 3
Devlina Chakravarty
Co-authored papers 3
Xiaoqin Zou
Dalton Cardiovascular Research Center, University of Missouri
Co-authored papers 3
Brian Jim??nez-Garc??a
Utrecht University
Co-authored papers 3
Iain H Moal
GSK Medicines Research Centre
Co-authored papers 3
Zhiping Weng
University of Massachusetts Medical School
Co-authored papers 3
Tyler Borrman
University of Massachusetts Medical School
Co-authored papers 2
Liming Qiu
Perelman School of Medicine, University of Pennsylvania
Co-authored papers 2
Saveliy Belkin
Co-authored papers 2
Dmitri Beglov
Boston University
Co-authored papers 2
Zhiwei Ma
Dalton Cardiovascular Research Center, University of Missouri
Co-authored papers 2
Panagiotis L Kastritis
Interdisciplinary Research Center HALOmem, Martin Luther University Halle-Wittenberg
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Release 1.2